SMTL ID : 4bn4.1

Structure of human SIRT3 in complex with ADP-ribose

Coordinates

PDB Format Compare

Method

X-RAY DIFFRACTION 1.30 Å

Oligo State

monomer

Ligands

1 x ZN: ZINC ION(Non-covalent)

ZN.1: 7 residues within 4Å: Chain A: C.141, V.143, C.144, C.165, V.167, C.168, G.170 4 PLIP interactions: 4 interactions with chain A Metal complexes: A:C.141, A:C.144, A:C.165, A:C.168

1 x NA: SODIUM ION(Non-functional Binders)

NA.2: 7 residues within 4Å: Chain A: I.33, S.34, H.95, N.114, D.116, L.118, E.119 3 PLIP interactions: 3 interactions with chain A Hydrogen bonds: A:S.34, A:S.34, A:H.95

1 x AR6: [(2R,3S,4R,5R)-5-(6-AMINOPURIN-9-YL)-3,4-DIHYDROXY-OXOLAN-2-YL]METHYL [HYDROXY-[[(2R,3S,4R,5S)-3,4,5-TRIHYDROXYOXOLAN-2-YL]METHOXY]PHOSPHORYL] HYDROGEN PHOSPHATE(Non-covalent)

AR6.3: 28 residues within 4Å: Chain A: G.30, A.31, G.32, T.35, P.36, D.41, F.42, R.43, S.44, Y.50, F.65, Q.113, N.114, H.133, F.179, G.204, T.205, S.206, L.207, V.209, N.229, R.230, D.231, V.233, G.249, D.250, V.251, V.252 24 PLIP interactions: 24 interactions with chain A Hydrogen bonds: A:A.31, A:G.32, A:T.35, A:F.42, A:R.43, A:R.43, A:Q.113, A:H.133, A:S.206, A:S.206, A:N.229, A:R.230, A:R.230, A:R.230, A:D.231, A:D.250, A:D.250, A:V.251 Water bridges: A:S.44, A:N.114, A:D.231 Salt bridges: A:R.43, A:R.43 pi-Cation interactions: A:R.230

1 x OP2: 2-[2-[2-[2-[2-(2-hydroxyethyloxy)ethoxy]ethoxy]ethoxy]ethoxy]ethanoic acid(Non-covalent)

OP2.4: 18 residues within 4Å: Chain A: A.31, S.34, I.39, P.40, F.42, L.49, L.53, Y.56, L.58, I.64, P.76, T.79, L.80, E.83, L.84, N.114, I.115, D.116 6 PLIP interactions: 6 interactions with chain A Hydrogen bonds: A:N.114, A:I.115, A:D.116, A:D.116 Water bridges: A:P.40, A:D.57

Links

RCSB   PDBe   PDBe-KB   PDBj   PDBsum   CATH   PLIP

Citation

Nguyen, G.T.T. et al., Structures of Human Sirtuin 3 Complexes with Adp-Ribose and with Carba-Nad+ and Srt1720: Binding Details and Inhibition Mechanism. Acta Crystallogr.,Sect.D (2013)

Release Date

2013-06-26

Peptides

NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-3, MITOCHONDRIAL: A

SMTL:PDB

SMTL Chain Id:
PDB Chain Id:

A
A

NAD-DEPENDENT PROTEIN DEACETYLASE SIRTUIN-3, MITOCHONDRIAL

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